Locus 5364

Sequence ID dm3.chr2R
Location 19,802,025 – 19,802,124
Length 99
Max. P 0.989587
window7356 window7357

overview

Window 6

Location 19,802,025 – 19,802,124
Length 99
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 53.91
Shannon entropy 0.82798
G+C content 0.48685
Mean single sequence MFE -29.48
Consensus MFE -14.62
Energy contribution -16.34
Covariance contribution 1.72
Combinations/Pair 1.24
Mean z-score -0.81
Structure conservation index 0.50
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 1.74
SVM RNA-class probability 0.965031
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19802025 99 + 21146708
-----UUACAGUUUUUUA---UAUAUUUGGACUUAGGCUAAUCCGCGUAGCUGCGCUGCCGGGUACGCCAGCAGCGGAGCGGCGUUCUUAUGUAUAUCUUAUAUAUC----
-----...........((---(((((..((((....((......))((.(((.((((((.((.....)).)))))).))).))))))..)))))))...........---- ( -32.20, z-score =  -1.78, R)
>droSim1.chr3h_random 100618 93 - 1452968
----------------UAAAUACAAUGGUUUCUUAGCCUAAGUCGAGGAGCAGCGCUGCCGGCAUAGCCUGCAGCGCAGCGACGCUUAUUUGCGUUUCCUACAUAUAUA--
----------------..........((((....)))).......((((((.(((((((.(((...))).))))))).))(((((......))))))))).........-- ( -34.50, z-score =  -2.81, R)
>dp4.Unknown_group_24 89642 111 - 109830
ACUGCUUUCAUAUCUUUUAAUUUAAAGUUUACUUGGCUAAGGCCGAGCAGCAGCGCUGCCAGAAAAGCCGUCAGCGCAGCGGCCGCAUUAUAUAUAAGCUUAAUGUUUAGU
.(((((....................(((..((((((....)))))).))).((((((.(.(.....).).)))))))))))..((((((..........))))))..... ( -27.20, z-score =   0.70, R)
>droPer1.super_51 391942 111 - 524598
ACUGCUUUCAUAUCUUUUAAUUUAAAGUUUACUUGGCUAAGGCCGAGCAGCAGCGCUGCCAGAAAAGCCGUCAGCGCAGCGGCCGCAUUAUAUAUAAGCUUAAUGUUUAGU
.(((((....................(((..((((((....)))))).))).((((((.(.(.....).).)))))))))))..((((((..........))))))..... ( -27.20, z-score =   0.70, R)
>droVir3.scaffold_13036 610849 84 + 1135500
-----UCAGAGUGUCUUACCCUCUAUCUCCAUAUGGCCAAGCCCGCACAGCCGCACUGCCGAACGCCCCCGCGGCGGAGCGGC-UUCAUA---------------------
-----...(((((((((..((.............))..)))...))))((((((.((((((..........)))))).)))))-)))...--------------------- ( -26.32, z-score =  -0.88, R)
>consensus
_____UUACAGAUCUUUAAAUUCAAUGUUUACUUGGCCAAGGCCGAGCAGCAGCGCUGCCGGAAAAGCCGGCAGCGCAGCGGCCGUAUUAUAUAUAACCUAAAUAUUUA__
...............................((((((....))))))..((.(((((((.((.....)).))))))).))............................... (-14.62 = -16.34 +   1.72)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,802,025 – 19,802,124
Length 99
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 53.91
Shannon entropy 0.82798
G+C content 0.48685
Mean single sequence MFE -31.22
Consensus MFE -16.44
Energy contribution -16.96
Covariance contribution 0.52
Combinations/Pair 1.50
Mean z-score -1.01
Structure conservation index 0.53
Background model dinucleotide
Decision model sequence based alignment quality
SVM decision value 2.38
SVM RNA-class probability 0.989587
Prediction RNA

Download alignment: ClustalW | MAF

>dm3.chr2R 19802025 99 - 21146708
----GAUAUAUAAGAUAUACAUAAGAACGCCGCUCCGCUGCUGGCGUACCCGGCAGCGCAGCUACGCGGAUUAGCCUAAGUCCAAAUAUA---UAAAAAACUGUAA-----
----..((((((................((.(((.(((((((((.....))))))))).)))...))(((((......)))))...))))---))...........----- ( -29.90, z-score =  -2.48, R)
>droSim1.chr3h_random 100618 93 + 1452968
--UAUAUAUGUAGGAAACGCAAAUAAGCGUCGCUGCGCUGCAGGCUAUGCCGGCAGCGCUGCUCCUCGACUUAGGCUAAGAAACCAUUGUAUUUA----------------
--.(((((((.((((.((((......)))).((.(((((((.(((...))).))))))).)))))))).....((........))..)))))...---------------- ( -31.10, z-score =  -1.33, R)
>dp4.Unknown_group_24 89642 111 + 109830
ACUAAACAUUAAGCUUAUAUAUAAUGCGGCCGCUGCGCUGACGGCUUUUCUGGCAGCGCUGCUGCUCGGCCUUAGCCAAGUAAACUUUAAAUUAAAAGAUAUGAAAGCAGU
............((((.(((((..((((((.((.((((((.(((.....))).)))))).)).))).(((....)))..)))..((((......))))))))).))))... ( -32.60, z-score =  -0.97, R)
>droPer1.super_51 391942 111 + 524598
ACUAAACAUUAAGCUUAUAUAUAAUGCGGCCGCUGCGCUGACGGCUUUUCUGGCAGCGCUGCUGCUCGGCCUUAGCCAAGUAAACUUUAAAUUAAAAGAUAUGAAAGCAGU
............((((.(((((..((((((.((.((((((.(((.....))).)))))).)).))).(((....)))..)))..((((......))))))))).))))... ( -32.60, z-score =  -0.97, R)
>droVir3.scaffold_13036 610849 84 - 1135500
---------------------UAUGAA-GCCGCUCCGCCGCGGGGGCGUUCGGCAGUGCGGCUGUGCGGGCUUGGCCAUAUGGAGAUAGAGGGUAAGACACUCUGA-----
---------------------..(.((-(((((.(.((((((..(.(....).)..)))))).).)).))))).)((....))...((((((......).))))).----- ( -29.90, z-score =   0.70, R)
>consensus
__UAAACAUUAAGCAUAUACAUAAGAACGCCGCUGCGCUGCCGGCUUUUCCGGCAGCGCUGCUGCUCGGCCUUGGCCAAGUAAACAUUAAAUUUAAAAAAAUGAAA_____
...............................((.((((((((((.....)))))))))).))((((.((......)).))))............................. (-16.44 = -16.96 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Tue Apr 19 22:46:51 2011